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X-ray crystal structure of the F6A mutant of influenza A acid polymerase epitope PA224 bound to murine H2-Db MHC
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3CC5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5.6 293 0.1M citrate, 0.2M ammonium acetate, 25% PEG4000, pH 5.6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.41 48.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.068 α = 90 b = 56.068 β = 90 c = 275.12 γ = 90
Symmetry Space Group P 43 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE RIGAKU RAXIS IV++ 2004-04-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.51478
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 2.7 28 98.2 0.091 18.4 4.5 12799 12799 1 1
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.8 98 0.317 5.1 4.6
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3CC5 2.7 28 12799 11531 1268 98.89 0.22031 0.22673 0.22031 0.2185 0.28409 0.2791 RANDOM 22.889
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] 0.47 0.47 -0.95
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.33 r_dihedral_angle_4_deg 15.879 r_dihedral_angle_3_deg 14.646 r_dihedral_angle_1_deg 4.974 r_angle_refined_deg 0.888 r_scangle_it 0.525 r_scbond_it 0.307 r_nbtor_refined 0.291 r_mcangle_it 0.255 r_nbd_refined 0.165
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.33 r_dihedral_angle_4_deg 15.879 r_dihedral_angle_3_deg 14.646 r_dihedral_angle_1_deg 4.974 r_angle_refined_deg 0.888 r_scangle_it 0.525 r_scbond_it 0.307 r_nbtor_refined 0.291 r_mcangle_it 0.255 r_nbd_refined 0.165 r_symmetry_vdw_refined 0.144 r_mcbond_it 0.141 r_symmetry_hbond_refined 0.136 r_xyhbond_nbd_refined 0.106 r_chiral_restr 0.06 r_bond_refined_d 0.006 r_gen_planes_refined 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3160 Nucleic Acid Atoms Solvent Atoms 122 Heterogen Atoms
Software Software Software Name Purpose CrystalClear data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling